Figure 3

Gene features that distinguish the three cohorts. (A) Average values that correspond to nucleosome occupancy [34], transcription rate [26], gene expression level [26], openING rate, the turnover rate of H3 histone [27] and PNAP II occupancy [44] are shown for modification-independent cohort (green), remodeling-independent cohort (red) and modification and remodeling cohort (blue). Values in each property were normalized (nucleosome occupancy and turnover rates were normalized among all promoters, RNAP II occupancy were normalized among all 200 bp upstream regions), such that their means are zero and standard deviations are one. (B) Ratio of transcription factor binding sites [37] localized in nucleosome [34], as well as ratio of promoters with multiple binding sites [37], TATA box [41], and H2A.Z [42] is shown for modification-independent cohort (green), remodeling-independent cohort (red), modification and remodeling cohort (blue) and all genes (purple). Error bars were calculated by bootstrapping.